Bibliography

Publications of the year

Doctoral Dissertations and Habilitation Theses

1L. Dimitrio.

Modelling nucleocytoplasmic transport with application to the intracellular dynamics of the tumor suppressor protein p53, Université Pierre et Marie Curie - Paris VI and Università degli studi di Roma I, September 2012.

http://hal.inria.fr/tel-00769901
2N. Jagiella.

Parameterization of Lattice-Based Tumor Models from Data, Université Pierre et Marie Curie - Paris VI, September 2012.

http://hal.inria.fr/tel-00779981
3W. Weens.

Mathematical modeling of liver tumor, Université Pierre et Marie Curie - Paris VI, September 2012.

http://hal.inria.fr/tel-00779177

Articles in International Peer-Reviewed Journals

4L. Almeida, P. Bagnerini, A. Habbal.

Modeling actin cable contraction, in: Comput. Math. Appl., 2012, vol. 64, n^o 3, p. 310–321.

http://dx.doi.org/10.1016/j.camwa.2012.02.041
5L. Almeida, A. Chambolle, M. Novaga.

Mean curvature flow with obstacles, in: Annales de l'Institut Henri Poincaré (C) Non Linear Analysis, 2012, vol. 29, n^o 5, p. 667 - 681. [ DOI : 10.1016/j.anihpc.2012.03.002 ]

http://www.sciencedirect.com/science/article/pii/S0294144912000297
6L. Almeida, J. Demongeot.

Predictive Power of “A Minima” Models in Biology, in: Acta Biotheoretica, 2012, vol. 60, p. 3-19.

http://dx.doi.org/10.1007/s10441-012-9146-4
7E. Audusse, C. Chalons, O. Delestre, N. Goutal, M. Jodeau, J. Sainte-Marie, J. Giesselmann, G. Sadaka.

Sediment transport modelling : Relaxation schemes for Saint-Venant – Exner and three layer models, in: ESAIM Proceedings, 2012, vol. 38, p. 78–98.

http://hal.inria.fr/hal-00674363
8S.-D. Ayata, M. Levy, O. Aumont, A. Sciandra, J. Sainte-Marie, A. Tagliabue, O. Bernard.

Phytoplankton growth formulation in marine ecosystem models: should we take into account photo-acclimation and variable stoichiometry in oligotrophic areas ?, in: Journal of Marine Systems, December 2012, Accepted.

http://hal.inria.fr/hal-00767456
9J. Baladron, D. Fasoli, O. Faugeras, J. Touboul.

Mean-field description and propagation of chaos in networks of Hodgkin-Huxley and FitzHugh-Nagumo neurons., in: The Journal of Mathematical Neuroscience, May 2012, vol. 2, n^o 1, 10 p. [ DOI : 10.1186/2190-8567-2-10 ]

http://hal.inria.fr/inserm-00732288
10F. Billy, J. Clairambault.

Designing proliferating cell population models with functional targets for control by anti-cancer drugs, in: Discrete and Continuous Dynamical Systems - Series B, 2013, Accepted, to appear (Vol. 18, # 4) in June 2013.

http://hal.inria.fr/hal-00726195
11F. Billy, J. Clairambault, F. Delaunay, C. Feillet, N. Robert.

Age-structured cell population model to study the influence of growth factors on cell cycle dynamics, in: Mathematical Biosciences and Engineering, 2013, vol. 10, p. 1–17.

http://hal.inria.fr/hal-00730457
12F. Billy, J. Clairambault, O. Fercoq, S. Gaubert, T. Lepoutre, T. Ouillon, S. Saito.

Synchronisation and control of proliferation in cycling cell population models with age structure, in: Math. Comp. Simul., 2012, in press, available on line Apr. 2012. [ DOI : 10.1016/j.matcom.2012.03.005 ]

http://hal.inria.fr/hal-00662885
13A.-C. Boulanger, M.-O. Bristeau, J. Sainte-Marie.

Analytical solutions for the free surface hydrostatic Euler equations, in: Communications in Mathematical Sciences, 2012, Accepted, to appear.

http://hal.inria.fr/hal-00751685
14A.-C. Boulanger, C. Cancès, H. Mathis, K. Saleh, N. Seguin.

OSAMOAL: optimized simulations by adapted models using asymptotic limits, in: ESAIM Proceedings, 2012, vol. 38, p. 183–201.

http://hal.inria.fr/hal-00733865
15V. Calvez, M. Doumic, P. Gabriel.

Self-similarity in a General Aggregation-Fragmentation Problem; Application to Fitness Analysis, in: J. Math. Pures Appl., 2012, vol. 98, p. 1–27.
16I. Cheddadi, P. Saramito, F. Graner.

Steady Couette flows of elastoviscoplastic fluids are non-unique, in: J. Rheol., January 2012, vol. 56, n^o 1, p. 213-239. [ DOI : 10.1122/1.3675605 ]

http://hal.inria.fr/hal-00616273
17J. Clairambault.

Can theorems help treat cancer?, in: J Math Biol, 2012, Published on line, Feb. 2012. [ DOI : 10.1007/s00285-012-0518-9 ]

http://hal.inria.fr/hal-00780203
18L. Dimitrio, J. Clairambault, R. Natalini.

A spatial physiological model for p53 intracellular dynamics, in: J Theor Biol, 2013, vol. 316, p. 9–24. [ DOI : 10.1016/j.jtbi.2012.08.035 ]

http://hal.inria.fr/hal-00726014
19M. Doumic, M. Hoffmann, P. Reynaud, V. Rivoirard.

Nonparametric estimation of the division rate of a size-structured population, in: SIAM J. on Numer. Anal., 2012, vol. 50, n^o 2, p. 925–950.
20M. Doumic, L. M. Tine.

Estimating the Division Rate for the Growth-Fragmentation Equation, in: Journal of Mathematical Biology, 2012, in press, published on line June 2012. [ DOI : 10.1007/s00285-012-0553-6 ]

http://hal.inria.fr/hal-00634539
21D. Drasdo, S. Hoehme.

Predicting the growth pattern of cell populations: pushing, pulling and the effect of an granular and cellular embedding medium, in: New Journal of Physics, 2012, vol. 14, 055025 p, Accepted.

http://hal.inria.fr/hal-00778129
22M. Galtier, J. Touboul.

On an explicit representation of the solution of general linear differential equations, in: Comptes-Rendus de l'académie des Sciences, Paris, Ser. I, 2012, vol. 35, n^o 3–4, p. 167–172.
23H.G. Holzhuetter, D. Drasdo, T. Preusser, J. Lippert, A.M. Henney.

The virtual liver: a multidisciplinary, multilevel challenge for systems biology, in: Wiley Interdiscip Rev Syst Biol Med, 2012, vol. 4, p. 221–235.

http://hal.inria.fr/hal-00779280
24F. James, N. Vauchelet.

Chemotaxis: from kinetic equations to aggregate dynamics, in: Nonlinear Differential Equations and Applications, 2012, published on line, March 2012.

http://hal.inria.fr/hal-00605479
25F. James, N. Vauchelet.

On the hydrodynamical limit for a one dimensional kinetic model of cell aggregation by chemotaxis, in: Riv. Mat. Univ. Parma, 2012, vol. 3, n^o 1, p. 91–113.
26A. Lorz.

A coupled Keller–Segel–Stokes model: global existence for small initial data and blow-up delay, in: Commun. Math. Sci., 2012, vol. 10, n^o 2, p. 555–574.

http://www.alexanderlorz.com/LorzKSfluid2011.pdf
27A. Lorz, T. Lorenzi, M. E. Hochberg, J. Clairambault, B. Perthame.

Populational adaptive evolution, chemotherapeutic resistance and multiple anti-cancer therapies, in: Mathematical Modelling and Numerical Analysis, 2012, Published online by Cambridge University Press, 02 September 2012. [ DOI : 10.1051/m2an/2012031 ]

http://hal.inria.fr/hal-00714274
28H. Ozbay, C. Bonnet, H. Benjelloun, J. Clairambault.

Stability Analysis of Cell Dynamics in Leukemia, in: Mathematical Modelling of Natural Phenomena, January 2012, vol. 7, n^o 1, p. 203-234. [ DOI : 10.1051/mmnp/20127109 ]

http://hal.inria.fr/hal-00766052
29S. Prigent, A. Ballesta, F. Charles, P. Gabriel, L. M. Tine, H. Rezaei, M. Doumic.

An Efficient Kinetic Model for Assemblies of Amyloid Fibrils and Its Application to Polyglutamine aggregation, in: Plos One, 2012, vol. Published on line November 2012.

http://dx.doi.org/10.1371/journal.pone.0043273
30I. Ramis-Conde, D. Drasdo.

From Genotypes to Phenotypes: classification of the tumour profiles in the cadherin adhesion pathway, in: Physical Biology, 2012, vol. Jun;9(3), 036008 p.

http://hal.inria.fr/hal-00779279
31T. Taillefumier, J. Touboul, M. Magnasco.

Exact Event-Driven Implementation for Recurrent Networks of Stochastic Perfect Integrate-and-Fire Neurons, in: Neural Computation, 2012, vol. 24, n^o 12, p. 3145–3180.
32M. Tang, N. Vauchelet, I. Cheddadi, I. Vignon-Clementel, D. Drasdo, B. Perthame.

Composite waves for a cell population system modelling tumor growth and invasion, in: Chinese Annals of Mathematics - Series B, 2013, vol. 34B, n^o 2, p. 295-318. [ DOI : 10.1007/s11401-007-0001-x ]

http://hal.inria.fr/hal-00685063
33F. Thomas, D. Fisher, P. Fort, J.-P. Marie, S. Daoust, B. Roche, C. Grunau, C. Cosseau, G. Mitta, S. Baghdiguian, F. Rousset, P. Lassus, E. Assenat, D. Grégoire, D. Missé, A. Lorz, F. Billy, W. Vainchenker, F. Delhommeau, S. Koscielny, R. Itzykson, R. Tang, F. Fava, A. Ballesta, T. Lepoutre, L. Krasinska, V. Dulic, P. Raynaud, P. Blache, C. Quittau-Prevostel, E. Vignal, H. Trauchessec, B. Perthame, J. Clairambault, V. Volpert, E. Solary, U. Hibner, M. E. Hochberg.

Applying ecological and evolutionary theory to cancer: a long and winding road, in: Evolutionary Applications, 2013, vol. 6, n^o 1, p. 1–10.

http://dx.doi.org/10.1111/eva.12021
34J. Touboul, G. Hermann, O. Faugeras.

Noise-induced behaviors in neural mean field dynamics, in: SIAM J. on Dynamical Systems, 2012, vol. 11, n^o 49–81.
35J. Touboul, G. Hermann.

Heterogeneous connections induce oscillations in large-scale networks, in: Physical Review Letters, 2012, vol. 109, n^o 018702.
36J. Touboul.

Controllability of the heat and wave equations and their finite difference approximations by the shape of the domain, in: Mathematical Control and Related Fields, 2012, vol. 2, n^o 4, p. 429–455.
37J. Touboul.

Limits and Dynamics of Stochastic Neuronal Networks with Random Heterogeneous Delays, in: Journal of Statistical Physics, 2012, vol. 149, n^o 4, p. 569–597.
38J. Touboul.

Mean-field equations for stochastic firing-rate neural fields with delays: Derivation and noise-induced transitions, in: Physica D: Nonlinear Phenomena, 2012, vol. 241, n^o 15.

International Conferences with Proceedings

39F. Billy, J. Clairambault, O. Fercoq, T. Lorenzi, A. Lorz, B. Perthame.

Modelling targets for anticancer drug control optimisation in physiologically structured cell population models, in: Proceedings of ICNAAM 2012, Kos (Greece), American Institute of Physics, 2012, vol. AIP Conf. Proc. 1479, p. 1323–1326.

http://hal.inria.fr/hal-00780721

Scientific Books (or Scientific Book chapters)

40A. Ballesta, J. Clairambault, S. Dulong, F. Lévi.

A systems biomedicine approach for chronotherapeutics optimization: focus on the anticancer drug irinotecan, in: New Challenges for Cancer Systems Biomedicine, SIMAI Lecture Notes, A. D'Onofrio, P. Cerrai, A. Gandolfi (editors), SIMAI Lecture Notes, Springer, New York, 2012, p. 301–327.

http://hal.inria.fr/hal-00780810
41N. Ben Abdallah, C. Jourdana, P. Pietra, N. Vauchelet.

A hybrid classical-quantum approach for ultra-scaled confined nanostructures : modeling and simulation, in: Congrès national de Mathématiques Appliquées et Industrielles, ESAIM Proc., EDP Sci., Les Ulis, 2012, vol. 35, p. 239–244.
42F. Billy, J. Clairambault, O. Fercoq.

Optimisation of cancer drug treatments using cell population dynamics, in: Mathematical Methods and Models in Biomedicine, U. Ledzewicz, H. Schättler, A. Friedman, E. Kashdan (editors), Lecture Notes on Mathematical Modelling in the Life Sciences, Springer New York, January 2013, p. 265–309. [ DOI : 10.1007/978-1-4614-4178-6_10 ]

http://hal.inria.fr/hal-00770366
43J. Clairambault, O. Fercoq.

Physiologically structured cell population dynamic models with applications to combined drug delivery optimisation in oncology, in: Mathematical modelling of cancer growth and treatment, New York, M. Bachar, J. Batzel, M. Chaplain (editors), LNMBIOS Subseries, Springer, New York, 2013, To appear.

http://hal.inria.fr/hal-00750633
44E. Ortiz-Tudela, A. Mteyrek, A. Ballesta, P. Innominato, F. Lévi.

Circadian timing in cancer treatments, in: Circadian clocks, A. Kramer, M. Merrow (editors), Handbook of experimental pharmacology, Springer, 2013, vol. 217, In press.

http://hal.inria.fr/hal-00780807

Internal Reports

45P.-L. Lions, B. Perthame, P. E. Souganidis.

Stochastic averaging lemmas for kinetic equations, CEREMADE, Univ. Paris-Dauphine and LJLL, UPMC and Inria Paris-Rocquencourt, April 2012.

http://hal.inria.fr/hal-00684372
46S. Stoma, A. Donzé, F. Bertaux, O. Maler, G. Batt.

STL-based analysis of TRAIL-induced apoptosis challenges the notion of type I/type II cell line classification, Inria, October 2012, n^o RR-8121, 35 p.

http://hal.inria.fr/hal-00750063

Other Publications

47N. Andre, D. Barbolosi, F. Billy, G. Chapuisat, F. Hubert, E. Grenier, A. Rovini.

Mathematical model of cancer growth controled by metronomic chemotherapies, 2012, 18 pages.

http://hal.inria.fr/hal-00751645
48E. Bouin, V. Calvez, N. Meunier, S. Mirrahimi, B. Perthame, G. Raoul, R. Voituriez.

Invasion fronts with variable motility: phenotype selection, spatial sorting and wave acceleration, 2012, 7 pages.

http://hal.inria.fr/hal-00716349
49M. Doumic, M. Hoffmann, N. Krell, L. Robert.

Statistical estimation of a growth-fragmentation model observed on a genealogical tree, 2012, 46 pages, 4 figures.

http://hal.inria.fr/hal-00763601
50S. Mirrahimi, B. Perthame, J. Y. Wakano.

Direct competition results from strong competiton for limited resource, 2012, Submitted.

http://hal.inria.fr/hal-00663832

References in notes

51E. Audusse, M.-O. Bristeau.

A well-balanced positivity preserving second-order scheme for shallow water flows on unstructured meshes, in: J. Comp. Phys., 2005, vol. 206, p. 311-333.
52A. Decoene.

Modèle hydrostatique pour les écoulements à surface libre tridimensionnels et schémas numériques, Université Pierre et Marie Curie, Paris 6, May 2006.
53M. Doumic, B. Perthame, J. Zubelli.

Numerical Solution of an Inverse Problem in Size-Structured Population Dynamics, in: Inverse Problems, 2009, vol. 25, n^o electronic version, 045008 p.
54J.-F. Gerbeau, B. Perthame.

Derivation of Viscous Saint-Venant System for Laminar Shallow Water; Numerical Validation, in: Discrete and Continuous Dynamical Systems, Ser. B, 2001, vol. 1, n^o 1, p. 89-102.
55S. Hoehme, M. Brulport, A. Bauer, E. Bedawy, W. Schormann, R. Gebhardt, S. Zellmer, M. Schwarz, E. Bockamp, T. Timmel, J. Hengstler, D. Drasdo.

Prediction and validation of cell alignment along microvessels as order principle to restore tissue architecture in liver regeneration, in: Proc. Natl. Acad. Sci. (USA), 2010, vol. 107, n^o 23, p. 10371–10376.
56S. Hoehme, D. Drasdo.

A cell-based simulation software for multi-cellular systems, in: Bioinformatics, 2010, vol. 26, n^o 20, p. 2641–2642.
57B. Perthame, J. Zubelli.

On the inverse problem for a size-structured population model, in: Inverse Problems, 2007, vol. 23, n^o 3, p. 1037–1052.

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